A citation-based method for searching scientific literature

Lawrence A David, Corinne F Maurice, Rachel N Carmody, David B Gootenberg, Julie E Button, Benjamin E Wolfe, Alisha V Ling, A Sloan Devlin, Yug Varma, Michael A Fischbach, Sudha B Biddinger, Rachel J Dutton, Peter J Turnbaugh. Nature 2014
Times Cited: 4416







List of co-cited articles
1010 articles co-cited >1



Times Cited
  Times     Co-cited
Similarity


Linking long-term dietary patterns with gut microbial enterotypes.
Gary D Wu, Jun Chen, Christian Hoffmann, Kyle Bittinger, Ying-Yu Chen, Sue A Keilbaugh, Meenakshi Bewtra, Dan Knights, William A Walters, Rob Knight,[...]. Science 2011
18

An obesity-associated gut microbiome with increased capacity for energy harvest.
Peter J Turnbaugh, Ruth E Ley, Michael A Mahowald, Vincent Magrini, Elaine R Mardis, Jeffrey I Gordon. Nature 2006
17

DADA2: High-resolution sample inference from Illumina amplicon data.
Benjamin J Callahan, Paul J McMurdie, Michael J Rosen, Andrew W Han, Amy Jo A Johnson, Susan P Holmes. Nat Methods 2016
14

Human gut microbiome viewed across age and geography.
Tanya Yatsunenko, Federico E Rey, Mark J Manary, Indi Trehan, Maria Gloria Dominguez-Bello, Monica Contreras, Magda Magris, Glida Hidalgo, Robert N Baldassano, Andrey P Anokhin,[...]. Nature 2012
13

A human gut microbial gene catalogue established by metagenomic sequencing.
Junjie Qin, Ruiqiang Li, Jeroen Raes, Manimozhiyan Arumugam, Kristoffer Solvsten Burgdorf, Chaysavanh Manichanh, Trine Nielsen, Nicolas Pons, Florence Levenez, Takuji Yamada,[...]. Nature 2010
11

Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2.
Evan Bolyen, Jai Ram Rideout, Matthew R Dillon, Nicholas A Bokulich, Christian C Abnet, Gabriel A Al-Ghalith, Harriet Alexander, Eric J Alm, Manimozhiyan Arumugam, Francesco Asnicar,[...]. Nat Biotechnol 2019
11


Impact of diet in shaping gut microbiota revealed by a comparative study in children from Europe and rural Africa.
Carlotta De Filippo, Duccio Cavalieri, Monica Di Paola, Matteo Ramazzotti, Jean Baptiste Poullet, Sebastien Massart, Silvia Collini, Giuseppe Pieraccini, Paolo Lionetti. Proc Natl Acad Sci U S A 2010
10

Dietary-fat-induced taurocholic acid promotes pathobiont expansion and colitis in Il10-/- mice.
Suzanne Devkota, Yunwei Wang, Mark W Musch, Vanessa Leone, Hannah Fehlner-Peach, Anuradha Nadimpalli, Dionysios A Antonopoulos, Bana Jabri, Eugene B Chang. Nature 2012
10

From Dietary Fiber to Host Physiology: Short-Chain Fatty Acids as Key Bacterial Metabolites.
Ara Koh, Filipe De Vadder, Petia Kovatcheva-Datchary, Fredrik Bäckhed. Cell 2016
9

The treatment-naive microbiome in new-onset Crohn's disease.
Dirk Gevers, Subra Kugathasan, Lee A Denson, Yoshiki Vázquez-Baeza, Will Van Treuren, Boyu Ren, Emma Schwager, Dan Knights, Se Jin Song, Moran Yassour,[...]. Cell Host Microbe 2014
9

A core gut microbiome in obese and lean twins.
Peter J Turnbaugh, Micah Hamady, Tanya Yatsunenko, Brandi L Cantarel, Alexis Duncan, Ruth E Ley, Mitchell L Sogin, William J Jones, Bruce A Roe, Jason P Affourtit,[...]. Nature 2009
9

Multi-omics of the gut microbial ecosystem in inflammatory bowel diseases.
Jason Lloyd-Price, Cesar Arze, Ashwin N Ananthakrishnan, Melanie Schirmer, Julian Avila-Pacheco, Tiffany W Poon, Elizabeth Andrews, Nadim J Ajami, Kevin S Bonham, Colin J Brislawn,[...]. Nature 2019
667
9

The SILVA ribosomal RNA gene database project: improved data processing and web-based tools.
Christian Quast, Elmar Pruesse, Pelin Yilmaz, Jan Gerken, Timmy Schweer, Pablo Yarza, Jörg Peplies, Frank Oliver Glöckner. Nucleic Acids Res 2013
9

The effect of diet on the human gut microbiome: a metagenomic analysis in humanized gnotobiotic mice.
Peter J Turnbaugh, Vanessa K Ridaura, Jeremiah J Faith, Federico E Rey, Rob Knight, Jeffrey I Gordon. Sci Transl Med 2009
9

Commensal microbe-derived butyrate induces the differentiation of colonic regulatory T cells.
Yukihiro Furusawa, Yuuki Obata, Shinji Fukuda, Takaho A Endo, Gaku Nakato, Daisuke Takahashi, Yumiko Nakanishi, Chikako Uetake, Keiko Kato, Tamotsu Kato,[...]. Nature 2013
8

Population-level analysis of gut microbiome variation.
Gwen Falony, Marie Joossens, Sara Vieira-Silva, Jun Wang, Youssef Darzi, Karoline Faust, Alexander Kurilshikov, Marc Jan Bonder, Mireia Valles-Colomer, Doris Vandeputte,[...]. Science 2016
973
8

Metabolic endotoxemia initiates obesity and insulin resistance.
Patrice D Cani, Jacques Amar, Miguel Angel Iglesias, Marjorie Poggi, Claude Knauf, Delphine Bastelica, Audrey M Neyrinck, Francesca Fava, Kieran M Tuohy, Chantal Chabo,[...]. Diabetes 2007
8

Human gut microbes impact host serum metabolome and insulin sensitivity.
Helle Krogh Pedersen, Valborg Gudmundsdottir, Henrik Bjørn Nielsen, Tuulia Hyotylainen, Trine Nielsen, Benjamin A H Jensen, Kristoffer Forslund, Falk Hildebrand, Edi Prifti, Gwen Falony,[...]. Nature 2016
845
8


Gut microbiome modulates response to anti-PD-1 immunotherapy in melanoma patients.
V Gopalakrishnan, C N Spencer, L Nezi, A Reuben, M C Andrews, T V Karpinets, P A Prieto, D Vicente, K Hoffman, S C Wei,[...]. Science 2018
8


Richness of human gut microbiome correlates with metabolic markers.
Emmanuelle Le Chatelier, Trine Nielsen, Junjie Qin, Edi Prifti, Falk Hildebrand, Gwen Falony, Mathieu Almeida, Manimozhiyan Arumugam, Jean-Michel Batto, Sean Kennedy,[...]. Nature 2013
7

You are what you eat: diet, health and the gut microbiota.
Niv Zmora, Jotham Suez, Eran Elinav. Nat Rev Gastroenterol Hepatol 2019
399
7

Diversity, stability and resilience of the human gut microbiota.
Catherine A Lozupone, Jesse I Stombaugh, Jeffrey I Gordon, Janet K Jansson, Rob Knight. Nature 2012
7

Dynamics and Stabilization of the Human Gut Microbiome during the First Year of Life.
Fredrik Bäckhed, Josefine Roswall, Yangqing Peng, Qiang Feng, Huijue Jia, Petia Kovatcheva-Datchary, Yin Li, Yan Xia, Hailiang Xie, Huanzi Zhong,[...]. Cell Host Microbe 2015
7

Intestinal microbiota metabolism of L-carnitine, a nutrient in red meat, promotes atherosclerosis.
Robert A Koeth, Zeneng Wang, Bruce S Levison, Jennifer A Buffa, Elin Org, Brendan T Sheehy, Earl B Britt, Xiaoming Fu, Yuping Wu, Lin Li,[...]. Nat Med 2013
7

Gut microbiota in human metabolic health and disease.
Yong Fan, Oluf Pedersen. Nat Rev Microbiol 2021
372
7

Intestinal Crosstalk between Bile Acids and Microbiota and Its Impact on Host Metabolism.
Annika Wahlström, Sama I Sayin, Hanns-Ulrich Marschall, Fredrik Bäckhed. Cell Metab 2016
890
7

The Impact of Dietary Fiber on Gut Microbiota in Host Health and Disease.
Kassem Makki, Edward C Deehan, Jens Walter, Fredrik Bäckhed. Cell Host Microbe 2018
627
7

Metagenomic biomarker discovery and explanation.
Nicola Segata, Jacques Izard, Levi Waldron, Dirk Gevers, Larisa Miropolsky, Wendy S Garrett, Curtis Huttenhower. Genome Biol 2011
7

A Dietary Fiber-Deprived Gut Microbiota Degrades the Colonic Mucus Barrier and Enhances Pathogen Susceptibility.
Mahesh S Desai, Anna M Seekatz, Nicole M Koropatkin, Nobuhiko Kamada, Christina A Hickey, Mathis Wolter, Nicholas A Pudlo, Sho Kitamoto, Nicolas Terrapon, Arnaud Muller,[...]. Cell 2016
984
7

Metabolites produced by commensal bacteria promote peripheral regulatory T-cell generation.
Nicholas Arpaia, Clarissa Campbell, Xiying Fan, Stanislav Dikiy, Joris van der Veeken, Paul deRoos, Hui Liu, Justin R Cross, Klaus Pfeffer, Paul J Coffer,[...]. Nature 2013
6

Diet-microbiota interactions and personalized nutrition.
Aleksandra A Kolodziejczyk, Danping Zheng, Eran Elinav. Nat Rev Microbiol 2019
228
6

The microbial metabolites, short-chain fatty acids, regulate colonic Treg cell homeostasis.
Patrick M Smith, Michael R Howitt, Nicolai Panikov, Monia Michaud, Carey Ann Gallini, Mohammad Bohlooly-Y, Jonathan N Glickman, Wendy S Garrett. Science 2013
6

US Immigration Westernizes the Human Gut Microbiome.
Pajau Vangay, Abigail J Johnson, Tonya L Ward, Gabriel A Al-Ghalith, Robin R Shields-Cutler, Benjamin M Hillmann, Sarah K Lucas, Lalit K Beura, Emily A Thompson, Lisa M Till,[...]. Cell 2018
246
6

A metagenome-wide association study of gut microbiota in type 2 diabetes.
Junjie Qin, Yingrui Li, Zhiming Cai, Shenghui Li, Jianfeng Zhu, Fan Zhang, Suisha Liang, Wenwei Zhang, Yuanlin Guan, Dongqian Shen,[...]. Nature 2012
6

High-level adherence to a Mediterranean diet beneficially impacts the gut microbiota and associated metabolome.
Francesca De Filippis, Nicoletta Pellegrini, Lucia Vannini, Ian B Jeffery, Antonietta La Storia, Luca Laghi, Diana I Serrazanetti, Raffaella Di Cagno, Ilario Ferrocino, Camilla Lazzi,[...]. Gut 2016
596
6

Diet dominates host genotype in shaping the murine gut microbiota.
Rachel N Carmody, Georg K Gerber, Jesus M Luevano, Daniel M Gatti, Lisa Somes, Karen L Svenson, Peter J Turnbaugh. Cell Host Microbe 2015
553
6

Delivery mode shapes the acquisition and structure of the initial microbiota across multiple body habitats in newborns.
Maria G Dominguez-Bello, Elizabeth K Costello, Monica Contreras, Magda Magris, Glida Hidalgo, Noah Fierer, Rob Knight. Proc Natl Acad Sci U S A 2010
6

Diet drives convergence in gut microbiome functions across mammalian phylogeny and within humans.
Brian D Muegge, Justin Kuczynski, Dan Knights, Jose C Clemente, Antonio González, Luigi Fontana, Bernard Henrissat, Rob Knight, Jeffrey I Gordon. Science 2011
6

Interactions between the microbiota and the immune system.
Lora V Hooper, Dan R Littman, Andrew J Macpherson. Science 2012
6

The gut microbiota as an environmental factor that regulates fat storage.
Fredrik Bäckhed, Hao Ding, Ting Wang, Lora V Hooper, Gou Young Koh, Andras Nagy, Clay F Semenkovich, Jeffrey I Gordon. Proc Natl Acad Sci U S A 2004
6

Obesity alters gut microbial ecology.
Ruth E Ley, Fredrik Bäckhed, Peter Turnbaugh, Catherine A Lozupone, Robin D Knight, Jeffrey I Gordon. Proc Natl Acad Sci U S A 2005
6

Microbiota-generated metabolites promote metabolic benefits via gut-brain neural circuits.
Filipe De Vadder, Petia Kovatcheva-Datchary, Daisy Goncalves, Jennifer Vinera, Carine Zitoun, Adeline Duchampt, Fredrik Bäckhed, Gilles Mithieux. Cell 2014
977
6

Expert consensus document: The International Scientific Association for Probiotics and Prebiotics (ISAPP) consensus statement on the definition and scope of prebiotics.
Glenn R Gibson, Robert Hutkins, Mary Ellen Sanders, Susan L Prescott, Raylene A Reimer, Seppo J Salminen, Karen Scott, Catherine Stanton, Kelly S Swanson, Patrice D Cani,[...]. Nat Rev Gastroenterol Hepatol 2017
6

Diet-microbiota interactions as moderators of human metabolism.
Justin L Sonnenburg, Fredrik Bäckhed. Nature 2016
899
6

Gut microbiome structure and metabolic activity in inflammatory bowel disease.
Eric A Franzosa, Alexandra Sirota-Madi, Julian Avila-Pacheco, Nadine Fornelos, Henry J Haiser, Stefan Reinker, Tommi Vatanen, A Brantley Hall, Himel Mallick, Lauren J McIver,[...]. Nat Microbiol 2019
422
6

Environment dominates over host genetics in shaping human gut microbiota.
Daphna Rothschild, Omer Weissbrod, Elad Barkan, Alexander Kurilshikov, Tal Korem, David Zeevi, Paul I Costea, Anastasia Godneva, Iris N Kalka, Noam Bar,[...]. Nature 2018
948
6

QIIME allows analysis of high-throughput community sequencing data.
J Gregory Caporaso, Justin Kuczynski, Jesse Stombaugh, Kyle Bittinger, Frederic D Bushman, Elizabeth K Costello, Noah Fierer, Antonio Gonzalez Peña, Julia K Goodrich, Jeffrey I Gordon,[...]. Nat Methods 2010
6


Co-cited is the co-citation frequency, indicating how many articles cite the article together with the query article. Similarity is the co-citation as percentage of the times cited of the query article or the article in the search results, whichever is the lowest. These numbers are calculated for the last 100 citations when articles are cited more than 100 times.